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Novel transcriptome resources for three scleractinian coral species from the Indo-Pacific
Transcriptomic resources for coral species can provide insight into coral evolutionary history and stress-response physiology. Goniopora columna, Galaxea astreata, and Galaxea acrhelia are scleractinian corals of the Indo-Pacific, representing a diversity of morphologies and life-history traits. G....
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5603760/ https://www.ncbi.nlm.nih.gov/pubmed/28938722 http://dx.doi.org/10.1093/gigascience/gix074 |
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author | Kenkel, Carly D. Bay, Line K |
author_facet | Kenkel, Carly D. Bay, Line K |
author_sort | Kenkel, Carly D. |
collection | PubMed |
description | Transcriptomic resources for coral species can provide insight into coral evolutionary history and stress-response physiology. Goniopora columna, Galaxea astreata, and Galaxea acrhelia are scleractinian corals of the Indo-Pacific, representing a diversity of morphologies and life-history traits. G. columna and G. astreata are common and cosmopolitan, while G. acrhelia is largely restricted to the coral triangle and Great Barrier Reef. Reference transcriptomes for these species were assembled from replicate colony fragments exposed to elevated (31°C) and ambient (27°C) temperatures. Trinity was used to create de novo assemblies for each species from 92–102 million raw Illumina Hiseq 2 × 150 bp reads. Host-specific assemblies contained 65 460–72 405 contigs, representing 26 693–37 894 isogroups (∼genes) with an average N50 of 2254. Gene name and/or gene ontology annotations were possible for 58% of isogroups on average. Transcriptomes contained 93.1–94.3% of EuKaryotic Orthologous Groups comprising the core eukaryotic gene set, and 89.98–91.92% of the single-copy metazoan core gene set orthologs were complete, indicating fairly comprehensive assemblies. This work expands the complement of transcriptomic resources available for scleractinian coral species, including the first reference for a representative of Goniopora spp. as well as species with novel morphology. |
format | Online Article Text |
id | pubmed-5603760 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-56037602017-09-25 Novel transcriptome resources for three scleractinian coral species from the Indo-Pacific Kenkel, Carly D. Bay, Line K Gigascience Data Note Transcriptomic resources for coral species can provide insight into coral evolutionary history and stress-response physiology. Goniopora columna, Galaxea astreata, and Galaxea acrhelia are scleractinian corals of the Indo-Pacific, representing a diversity of morphologies and life-history traits. G. columna and G. astreata are common and cosmopolitan, while G. acrhelia is largely restricted to the coral triangle and Great Barrier Reef. Reference transcriptomes for these species were assembled from replicate colony fragments exposed to elevated (31°C) and ambient (27°C) temperatures. Trinity was used to create de novo assemblies for each species from 92–102 million raw Illumina Hiseq 2 × 150 bp reads. Host-specific assemblies contained 65 460–72 405 contigs, representing 26 693–37 894 isogroups (∼genes) with an average N50 of 2254. Gene name and/or gene ontology annotations were possible for 58% of isogroups on average. Transcriptomes contained 93.1–94.3% of EuKaryotic Orthologous Groups comprising the core eukaryotic gene set, and 89.98–91.92% of the single-copy metazoan core gene set orthologs were complete, indicating fairly comprehensive assemblies. This work expands the complement of transcriptomic resources available for scleractinian coral species, including the first reference for a representative of Goniopora spp. as well as species with novel morphology. Oxford University Press 2017-08-23 /pmc/articles/PMC5603760/ /pubmed/28938722 http://dx.doi.org/10.1093/gigascience/gix074 Text en © The Authors 2017. Published by Oxford University Press. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Data Note Kenkel, Carly D. Bay, Line K Novel transcriptome resources for three scleractinian coral species from the Indo-Pacific |
title | Novel transcriptome resources for three scleractinian coral species from the Indo-Pacific |
title_full | Novel transcriptome resources for three scleractinian coral species from the Indo-Pacific |
title_fullStr | Novel transcriptome resources for three scleractinian coral species from the Indo-Pacific |
title_full_unstemmed | Novel transcriptome resources for three scleractinian coral species from the Indo-Pacific |
title_short | Novel transcriptome resources for three scleractinian coral species from the Indo-Pacific |
title_sort | novel transcriptome resources for three scleractinian coral species from the indo-pacific |
topic | Data Note |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5603760/ https://www.ncbi.nlm.nih.gov/pubmed/28938722 http://dx.doi.org/10.1093/gigascience/gix074 |
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